Hi,
I have run the same command but disabling KNEM (with -mca
btl_sm_use_knem 0), and it gives me, still, the same errors. Futhermore,
I've noticed when I run, for instance, ompi_info, I get one of the same
errors as when running mpirun:
Warning: Conflicting CPU frequencies detected, using:
Hi,
when I try sudo modprobe knem, I get:
FATAL: Error inserting knem
(/lib/modules/3.13.0-37-generic/updates/dkms/knem.ko): Invalid module format
Cheers,
Juan
On 18/01/17 15:08, Gilles Gouaillardet wrote:
Juan,
So you need to load the knem module
sudo modprobe knem
and then you can check i
Juan,
So you need to load the knem module
sudo modprobe knem
and then you can check it is correctly loaded with lsmod
Loading the module should automagically create /dev/knem, but maybe not
with the permissions you expect
Cheers,
Gilles
On Wednesday, January 18, 2017, Juan A. Cordero Varelaq <
Hi,
knem and MOFED drivers are installed in /opt:
* /opt/knem-1.1.90mlnx2
* /opt/mellanox/fca
* /opt/mellanox/mxm
* /opt/mellanox/openshmem
However/dev/knem does not exist.
Cheers,
Juan
On 18/01/17 11:36, Gilles Gouaillardet wrote:
Juan,
You also need to make sure knem and MOFED driver
Juan,
You also need to make sure knem and MOFED drivers are loaded on all the
compute nodes.
You also need to double check the permissions of /dev/knem
Cheers,
Gilles
On Wednesday, January 18, 2017, Juan A. Cordero Varelaq <
bioinformatica-i...@us.es> wrote:
> Sure, I attach the config.log fro
Can you please attach your configure log. It looks like both MXM and the
Vader BTL (used for OSC) are complaining because they can't find your KNEM
installation.
Josh
On Tue, Jan 17, 2017 at 7:16 AM, Juan A. Cordero Varelaq <
bioinformatica-i...@us.es> wrote:
> Hi, I am running on my SCG cluster
Hi, I am running on my SCG cluster the following script (using qsub):
#!/bin/bash
#$-cwd
#$ -S /bin/bash
#$ -V
#$ -q normal
#$ -pe mpi 40
#$ -P Lab219
#$ -o output
#$ -e error
module load PhyML/3.3
mpirun --mca pml yalla -np 40 phyml-mpi -i proteic -b 10 -d aa
where phyml-mpi is the parallel ver
